rs27590034 SNP Detail

Summary

• ID
  rs27590034
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr4:130545602 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTCATCTCGT CCCCTCCAAG
  CCCCTCATCT TACCCCTTCT TGAGTTGTGC CCGTGGCCTG GGAAGGGCTC TGCAAGAAGG
  CCTCATCCCC TCTGGTGATC TGCTCACGTG TGGAAGGTGG AGTGGCTCAG GGTCTCTGCT
  GCCATGACTT TGTGTGAGGC ATGTCCTTGG GTCTGGCCCT TCTCACGGGG CCAGGCCTCG
  Y
  TCCCCTGTAA CCCTGAATGG ATGGATTCCA GACAGAGGCT TCGGTCAGCA GTTGCTAGGC
  CTCAGGTTGG CAGAGTCAGG ACAGGCTGCC TGGAAATTGT GGCCCCCTCG AGGATTTTGG
  CTAGGCACGG GCTAGCATCT GCTCAAACCT CTTCCTTTCT GTCTTGTTTT CCTGGGGAAA
  TTGCTTGTGT GTGTGGGGGG                                            
  
  Y = C/T
  

  
  Note: Sequence in lower case indicates low-complexity or repetitive sequence

  ---

SNP Assays
and
SNP Consensus

Strain alleles of submitted assays, and consensus values for this SNP

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37753359	NES09165261	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T		C	T	T	C		T
ss321318841	CHEV_4_130374206	CHEVERUD	SCREENING_POP	f	SNP										T					C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs27590034					SNP	T	T	T	T	T	T	C	T	T	T	C	T	T	C	C	T

Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	Alleles
ss37753359	NES09165261	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:130545602 () rs orientation: forward

Symbol	Name	Function Class
Sdc3	syndecan 3	within coordinates
Tssr39263	transcription start site region 39263	1438 bp downstream
Tssr39264	transcription start site region 39264	1380 bp downstream
Tssr39265	transcription start site region 39265	300 bp upstream
Tssr39266	transcription start site region 39266	322 bp upstream
Tssr39267	transcription start site region 39267	340 bp upstream
Tssr39268	transcription start site region 39268	364 bp upstream
Tssr39269	transcription start site region 39269	411 bp upstream
Tssr39270	transcription start site region 39270	436 bp upstream
Tssr39271	transcription start site region 39271	475 bp upstream
Tssr39272	transcription start site region 39272	497 bp upstream
Tssr39273	transcription start site region 39273	557 bp upstream
Tssr39274	transcription start site region 39274	599 bp upstream
Tssr39275	transcription start site region 39275	615 bp upstream
Tssr39276	transcription start site region 39276	651 bp upstream
Tssr39277	transcription start site region 39277	667 bp upstream
Tssr39278	transcription start site region 39278	680 bp upstream
Tssr43599	transcription start site region 43599	398 bp downstream
Tssr43600	transcription start site region 43600	421 bp downstream
Tssr43601	transcription start site region 43601	478 bp downstream